neherlab / treetimeLinks
Maximum likelihood inference of time stamped phylogenies and ancestral reconstruction
☆246Updated this week
Alternatives and similar repositories for treetime
Users that are interested in treetime are comparing it to the libraries listed below
Sorting:
- A user-friendly workflow for phylogenomics☆221Updated 2 months ago
- Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins☆203Updated last month
- Build a partitioned pangenome graph from microbial genomes☆281Updated last week
- CAMISIM: Simulating metagenomes and microbial communities☆214Updated last week
- Bacterial ribosomal RNA predictor☆256Updated 2 years ago
- Convert various sequence formats to FASTA☆138Updated 3 years ago
- An updated pipeline for pangenome investigation☆316Updated 7 months ago
- Processing pipeline for pan-genome visulization and exploration☆140Updated 2 years ago
- A tool to circularize genome assemblies☆247Updated last year
- Pan-genome wide association studies☆204Updated last year
- breseq is a computational pipeline for finding mutations relative to a reference sequence using high-throughput DNA resequencing data. It…☆172Updated 2 months ago
- A sequencing simulator☆210Updated 3 months ago
- snipit: summarise snps relative to your reference sequence☆162Updated 3 weeks ago
- BSR-Based Allele Calling Algorithm☆148Updated 3 weeks ago
- Pipeline for metabolic annotation of microbial genomes☆150Updated 6 months ago
- Short Read Sequence Typing for Bacterial Pathogens☆139Updated 4 years ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆333Updated last month
- Finds SNP sites from a multi-FASTA alignment file☆266Updated 4 years ago
- ⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads☆237Updated 2 years ago
- Rapid comparison and dereplication of genomes☆311Updated 4 months ago
- Precise phylogenetic analysis of microbial isolates and genomes from metagenomes☆156Updated 3 months ago
- A tool for automated alignment trimming in large-scale phylogenetic analyses. Development version: 2.0☆224Updated this week
- HyPhy: Hypothesis testing using Phylogenies☆242Updated this week
- baltic - backronymed adaptable lightweight tree import code for molecular phylogeny manipulation, analysis and visualisation. Development…☆112Updated last month
- Download files from NCBI Entrez by accession☆129Updated last year
- Pairwise SNP distance matrix from a FASTA sequence alignment☆141Updated last year
- 🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results☆239Updated last year
- Software for aligning viewing and editing dna/aminoacid sequences, intuitive, fast and lightweight. Download and website:☆142Updated 7 months ago
- Antimicrobial Resistance Identification By Assembly☆180Updated 2 years ago
- an interactive viewer for populations of bacterial genomes linked by a phylogeny☆128Updated last year